Vince Buffalo

A package for higher-level R metadata extraction

11

Basically there should be a higher-level way to extract metadata from directory and filenames. For example: ``` 150202_HS2A/Project_XXX/Sample_OEP02_N712_S508/OEP02_N712_S508_GTAGAGGA-CTAAGCCT_L002_R1_001.fastq.gz ``` There's a ton of metadata in this file that we should...

A contemporary Iris dataset package

35

This has been something on my todo list for [a while](https://twitter.com/vsbuffalo/status/455136975054315521): an R package that's a collection of useful teaching datasets — in a way, a contemporary Fisher's Iris dataset....

If a user's input reference sequences have a semicolon in the name, this clashes with the use of the semicolon as a delimiter in the `XA:Z` tag. It may be...

Support `ax=` argument in `optuna.visualization.matplotlib.plot_*` functions

3

### Motivation Currently, Optuna's Matplotlib-based visualizations (e.g., `plot_optimization_history`, `plot_contour`, `plot_param_importances`) return a `matplotlib.axes.Axes` object but do not accept an `ax=` argument. This prevents users from embedding these plots into a...

Thank you again for oras-py! I have found a few more issues and have included a PR below. I will also try to submit a PR soon for #217 (I...

Data loss: oras-py strips paths to basename → filename collisions on pull

1

## Summary `oras-py` sets layer titles via `os.path.basename(...)`, unlike ORAS CLI which preserves relative paths (`org.opencontainers.image.title`). Files sharing a basename (e.g., `src/model.py` & `lib/model.py`) collide on pull → one overwrites...